UNIX systems:
1) Download the file.
2) Uncompress with: uncompress webmol.tar.Z
3) Un-tar the file: tar -xvf webmol.tar
PCs/ Win95:
1) Save link as File (right mouse button)
2) Uncompress and Un-tar with WinZip
To run WebMol as a stand-alone application - allowing you to read directly from your local file system or across the web - you need the Java runtime execution environment.
Add the newly created webmol directory to your CLASSPATH
(e.g. setenv CLASSPATH path_to_webmol_directory or
setenv CLASSPATH path_to_webmol_dir:other_paths_separated_by_colons
or run WebMol from within the webmol directory.
Run WebMol with:
java webmol pdb_file or
java webmol http-address
(Example: java webmol http://www.embl-heidelberg.de/~walther/JAVA/pdb/1crn.brk)
or
java webmol ftp-address
(Example: java webmol ftp://pdb.pdb.bnl.gov//fullrelease/uncompressed_files/23/pdb123l.ent )
make sure java and associated programs (e.g.javat) are in your path
Consider setting: alias webmol 'java webmol' in your .cshrc. Then you can run WebMol with the command 'webmol' alone.
Windows-PC: For convenience, try setting a shortcut to webmol.
If available (SGI), you can apply the following optimization:
1) Translate the byte-code into machine dependent optimized code: javat *.class
2) run with: java -tran -jit webmol pdb_file
Note: Resizing problems have been noticed with JDK 1.0.
Development and testing performed on an SGI running under IRIX 6.2.
Get the JDK 1.1.2 for Irix 5.3, 6.2, 6.3, and 6.4
here.